HsaINT0083902 @ hg38
Intron Retention
Gene
ENSG00000173801 | JUP
Description
junction plakoglobin [Source:HGNC Symbol;Acc:HGNC:6207]
Coordinates
chr17:41758399-41758870:-
Coord C1 exon
chr17:41758715-41758870
Coord A exon
chr17:41758519-41758714
Coord C2 exon
chr17:41758399-41758518
Length
196 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGT
5' ss Score
9.94
3' ss Seq
CCCTGCCTCCTCTCACACAGGAT
3' ss Score
9.35
Exon sequences
Seq C1 exon
GCAACCATCGGCTTGATCAGGAATCTGGCCCTGTGCCCAGCCAACCATGCCCCGCTGCAGGAGGCAGCGGTCATCCCCCGCCTCGTCCAACTGCTGGTGAAGGCCCACCAGGATGCCCAGCGCCACGTAGCTGCAGGCACACAGCAGCCCTACACG
Seq A exon
GTATGTGAGCTGGTGGTGCCTCTGACAGCCTTCCTGGGGGGTCAGGGTGTCCTCTGTGGGTGTGTGTGTGAATGGGGAGGTCAGTTGCAACTGATGCCAATTCCAAGAACCTGTGAAGTTCATTCGGCTGTCATGGGGAGGAGTTGTGGCCATGTCCAAGGCACCTGTCCCATGCCCCCTGCCTCCTCTCACACAG
Seq C2 exon
GATGGTGTGAGGATGGAGGAGATTGTGGAGGGCTGCACCGGAGCACTGCACATCCTCGCCCGGGACCCCATGAACCGCATGGAGATCTTCCGGCTCAACACCATTCCCCTGTTTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173801:ENST00000310706:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.139 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0051418=Arm=PU(43.9=45.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTGATCAGGAATCTGGCCC
R:
TGTTGAGCCGGAAGATCTCCA
Band lengths:
246-442
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development